I doubt an oval hole would have any ill effect. If you have the option, see if you can find (or make) some dowels that are about .010" smaller I.D. than the stock ones, for some added stiffness against the rod offset with those big pistons. In the older 1000cc kits from the early 1970s era, I would see these lower dowels and holes get skewed after some long, hard miles, letting misalignments show up and leaks at the base cylinder become a problem. One machine shop in Illinois would deepen the holes in the cylinders (going "up" further) so they could make longer dowel tubes, then make these .010" thicker-walled ones. That seemed to fix them up better.
I have some cases from a K4 that seem OK, except where the PO broke off the top rear tube and had it rewelded back on. It looks like he dropped the engine, upside down, to crack it. I'd let them go cheap.